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NC_018843.1__YP_006906749.1__SSU5_117__00117

Bact-Vir

NC_018843.1__YP_006906749.1__SSU5_117__00117

Identity

Accession:
NC_018843 ↗
Kingdom:
phage

Quality

93.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Salmonella_phage_SSU5

TaxID: 1177632

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 2-57
PDB
Domain cluster: representative
CATH (33)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1uc8A03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.72 56.0 4.73e-01 85.7% 67.0%
1nioA01 3.40.420.10 Alpha Beta › 3-Layer(aba) Sandwich › Ricin (A subunit); domain 1 › Ricin (A subunit), domain 1 0.69 56.0 4.07e-01 92.9% 71.0%
2eqmA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.62 50.0 5.18e-01 100.0% 96.2%
4le5B03 3.30.300.10 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.61 51.0 3.92e-01 96.4% 89.6%
8p2bA01 3.90.1010.20 Alpha Beta › Alpha-Beta Complex › Sufe protein. Chain: A › 0.60 45.0 4.18e-01 89.3% 100.0%
7cfdA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.58 42.0 4.01e-01 100.0% 64.4%
2gv9A03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.58 48.0 3.21e-01 92.9% 99.5%
3h8zA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.58 42.0 4.45e-01 96.4% 93.8%
1khcA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.58 48.0 4.63e-01 100.0% 81.5%
5g56A03 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.57 45.0 3.70e-01 96.4% 100.0%
1mkeA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.57 44.0 3.27e-01 83.9% 71.5%
2vb6A01 2.30.30.360 Mainly Beta › Roll › SH3 type barrels. › Myosin S1 fragment, N-terminal 0.57 41.0 4.24e-01 100.0% 85.2%
1wdiA02 2.40.10.240 Mainly Beta › Beta Barrel › Thrombin, subunit H › QueA-like 0.56 49.0 4.52e-01 100.0% 100.0%
2ej9A02 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.56 41.0 4.33e-01 100.0% 93.9%
4u3qB00 2.40.128.640 Mainly Beta › Beta Barrel › Lipocalin › 0.56 48.0 4.05e-01 100.0% 85.9%
2cocA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.56 47.0 3.99e-01 100.0% 77.0%
3fqmA01 2.20.25.210 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › Hepatitis C NS5A, domain 1B 0.55 40.0 3.97e-01 100.0% 75.4%
2p39A00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.55 44.0 3.47e-01 98.2% 86.6%
2rm4A01 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.55 46.0 4.47e-01 100.0% 86.4%
1wr2A01 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.54 45.0 3.37e-01 96.4% 49.7%
7jl1B01 2.60.120.920 Mainly Beta › Sandwich › Jelly Rolls › SPRY domain 0.54 44.0 3.40e-01 100.0% 74.2%
1h3zA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.54 47.0 3.80e-01 100.0% 54.6%
1boqA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.54 45.0 3.76e-01 98.2% 68.2%
5aa5E00 1.10.645.10 Mainly Alpha › Orthogonal Bundle › Cytochrome-c3 Hydrogenase; chain B › Cytochrome-c3 Hydrogenase, chain B 0.54 45.0 2.62e-01 100.0% 97.7%
2ekhA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.54 42.0 3.87e-01 92.9% 73.8%
3b79A00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.53 45.0 3.59e-01 100.0% 44.8%
7fj9B01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.53 43.0 3.18e-01 92.9% 97.4%
3zyyX04 3.30.420.480 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Domain of unknown function (DUF4445) 0.53 43.0 3.08e-01 94.6% 94.7%
8p2aA01 3.90.1010.20 Alpha Beta › Alpha-Beta Complex › Sufe protein. Chain: A › 0.53 44.0 3.94e-01 100.0% 86.2%
1maiA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 46.0 3.60e-01 100.0% 73.1%
1wgqA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 43.0 3.60e-01 100.0% 71.6%
6a97C01 3.30.500.10 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like 0.51 40.0 3.09e-01 87.5% 91.6%
2k49A00 2.30.29.80 Mainly Beta › Roll › PH-domain like › 0.50 40.0 3.30e-01 96.4% 78.8%
ECOD (56)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3226400 4184.1.1.2 ↗ beta barrels › MFPT repeat › MFPT repeat › MFPT repeat › MFP2b 0.73 55.0 4.67e-01 100.0% 50.0%
3789912 4184.1.1.2 ↗ beta barrels › MFPT repeat › MFPT repeat › MFPT repeat › MFP2b 0.71 52.0 4.58e-01 100.0% 52.9%
5077745 243.6.1.9 ↗ a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain › TGT_C2 0.70 48.0 4.33e-01 73.2% 81.2%
3700776 292.2.1.0 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain 0.68 54.0 5.07e-01 91.1% 70.0%
3428486 4.1.1.33 ↗ beta barrels › SH3 › SH3 › SH3 › Myosin_N 0.66 48.0 4.29e-01 100.0% 55.0%
5037522 7515.1.1.2 ↗ a/b three-layered sandwiches › Alkaline phosphatase-like › Alkaline phosphatase-like › Alkaline phosphatase-like › Sulfatase 0.66 50.0 2.97e-01 94.6% 10.7%
3398496 4.1.1.33 ↗ beta barrels › SH3 › SH3 › SH3 › Myosin_N 0.65 49.0 4.93e-01 100.0% 83.6%
3710823 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.65 46.0 4.87e-01 100.0% 86.0%
4473115 4.1.1.5 ↗ beta barrels › SH3 › SH3 › SH3 › KOW,Ribosomal_L14e 0.65 48.0 4.00e-01 100.0% 45.0%
3996278 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.65 46.0 3.63e-01 100.0% 35.8%
185624 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.65 46.0 4.08e-01 85.7% 51.8%
4947899 243.6.1.12 ↗ a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain › PUA 0.64 45.0 3.94e-01 73.2% 77.6%
26896 4184.1.1.2 ↗ beta barrels › MFPT repeat › MFPT repeat › MFPT repeat › MFP2b 0.64 47.0 4.21e-01 100.0% 53.5%
3217211 4184.1.1.2 ↗ beta barrels › MFPT repeat › MFPT repeat › MFPT repeat › MFP2b 0.64 48.0 4.11e-01 100.0% 49.5%
3622846 4.1.1.33 ↗ beta barrels › SH3 › SH3 › SH3 › Myosin_N 0.64 47.0 4.96e-01 100.0% 92.0%
4028958 245.1.1.0 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 0.63 51.0 4.25e-01 92.9% 81.9%
3702154 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 48.0 4.42e-01 100.0% 66.7%
3471734 245.1.1.0 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 0.60 49.0 4.50e-01 94.6% 70.5%
3795121 4.1.1.110 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_FRX1 0.60 44.0 4.26e-01 100.0% 69.2%
171891 4.1.1.110 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_FRX1 0.60 45.0 4.59e-01 100.0% 85.5%
3970145 323.1.1.0 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases 0.59 42.0 2.82e-01 78.6% 90.8%
3550644 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.59 44.0 4.52e-01 100.0% 85.5%
3436891 4.2.1.6 ↗ beta barrels › SH3 › SAND › SAND › SAND_ULT1 0.59 51.0 4.27e-01 100.0% 70.0%
4053957 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.59 44.0 4.63e-01 100.0% 94.0%
3971733 11.9.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › FAH › FAH 0.59 51.0 3.20e-01 100.0% 22.2%
4169657 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.59 45.0 4.69e-01 98.2% 96.0%
119300 3153.1.1.1 ↗ a+b two layers › PipX › PipX › PipX › PipX 0.58 43.0 3.79e-01 92.9% 51.7%
4583465 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.58 42.0 4.41e-01 98.2% 92.0%
4252943 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.57 42.0 4.37e-01 98.2% 92.0%
4336500 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.57 43.0 4.41e-01 100.0% 87.3%
3218198 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.57 42.0 4.28e-01 100.0% 85.5%
3226306 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.56 46.0 3.68e-01 91.1% 75.7%
3743651 6.1.1.11 ↗ beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil › Fascin 0.56 48.0 3.54e-01 100.0% 83.1%
2388633 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.56 45.0 3.95e-01 94.6% 76.3%
4937852 244.3.1.4 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › SufE/NifU › SufE/NifU › Lip_prot_lig_C 0.56 46.0 3.98e-01 94.6% 72.2%
5058176 206.1.3.3 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › PPDK_N 0.55 44.0 2.98e-01 100.0% 31.0%
3743243 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.55 45.0 4.00e-01 94.6% 80.0%
3424661 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.55 46.0 2.91e-01 100.0% 82.6%
5080369 244.3.1.4 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › SufE/NifU › SufE/NifU › Lip_prot_lig_C 0.55 43.0 3.76e-01 92.9% 96.8%
3937635 3257.1.1.1 ↗ a+b complex topology › Phosphoinositide phosphatase SAC1 N-terminal domain › Phosphoinositide phosphatase SAC1 N-terminal domain › Phosphoinositide phosphatase SAC1 N-terminal domain › Syja_N 0.55 44.0 3.22e-01 100.0% 57.4%
4468917 3518.1.1.1 ↗ a+b two layers › putative RnfG subunit of electron transport complex › putative RnfG subunit of electron transport complex › putative RnfG subunit of electron transport complex › FMN_bind 0.54 44.0 3.77e-01 94.6% 87.0%
4114338 244.3.1.4 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › SufE/NifU › SufE/NifU › Lip_prot_lig_C 0.54 42.0 3.73e-01 91.1% 96.7%
3620094 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.54 40.0 4.09e-01 100.0% 89.1%
185067 219.1.1.18 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C39 0.53 45.0 3.59e-01 100.0% 45.2%
3058786 3518.1.1.1 ↗ a+b two layers › putative RnfG subunit of electron transport complex › putative RnfG subunit of electron transport complex › putative RnfG subunit of electron transport complex › FMN_bind 0.53 44.0 3.91e-01 100.0% 84.3%
1300262 6.1.1.0 ↗ beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil 0.53 42.0 3.15e-01 100.0% 87.8%
3326132 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.53 40.0 3.92e-01 100.0% 75.4%
3436240 5.1.4.550 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Kelch_FKB95 0.53 44.0 2.83e-01 100.0% 83.3%
5027903 244.4.1.4 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › Ni-Fe binding domain in nickel-iron hydrogenase large subunit › Ni-Fe binding domain in nickel-iron hydrogenase large subunit › PF27537 0.52 44.0 3.85e-01 100.0% 76.7%
4214517 3518.1.1.1 ↗ a+b two layers › putative RnfG subunit of electron transport complex › putative RnfG subunit of electron transport complex › putative RnfG subunit of electron transport complex › FMN_bind 0.52 43.0 3.90e-01 100.0% 91.8%
3830081 5.1.3.65 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › DUF295 0.52 40.0 2.66e-01 96.4% 37.5%
3201717 708.1.2.6 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › Mss4-like › GFA 0.52 39.0 2.96e-01 89.3% 68.5%
3648232 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.52 41.0 2.66e-01 98.2% 28.2%
3539509 219.1.1.54 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C98 0.51 40.0 2.60e-01 100.0% 17.9%
3724000 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.50 41.0 3.34e-01 96.4% 63.3%
5076154 244.3.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › SufE/NifU › SufE/NifU 0.50 42.0 3.76e-01 100.0% 97.6%
D2 high residues 58-156
PDB
Domain cluster: representative
CATH (9)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4omfB02 3.10.450.750 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.63 27.0 3.75e-01 89.9% 83.0%
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.62 41.0 4.63e-01 98.0% 89.5%
1h99A01 1.10.1790.10 Mainly Alpha › Orthogonal Bundle › PTS-regulatory domain, PRD › PRD domain 0.56 40.0 3.94e-01 74.7% 70.2%
3pbkA02 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.54 39.0 3.85e-01 90.9% 69.4%
1bymA00 2.30.30.90 Mainly Beta › Roll › SH3 type barrels. › Ferrous iron transport protein A (FeoA) 0.54 36.0 3.64e-01 100.0% 69.1%
3d6wB01 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.52 27.0 3.13e-01 92.9% 68.6%
3h8zA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.51 26.0 3.11e-01 100.0% 71.9%
1wgwA00 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.51 38.0 3.81e-01 83.8% 78.8%
1ks9A02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.50 41.0 3.89e-01 90.9% 87.0%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4870236 367.1.1.2 ↗ few secondary structure elements › Insulin-like › Insulin-like › Insulin-like › Ins_beta 0.76 36.0 4.69e-01 72.7% 80.4%
4082530 865.1.1.2 ↗ beta complex topology › PheT/TilS domain › PheT/TilS domain › PheT/TilS domain › TilS_C 0.70 31.0 3.01e-01 100.0% 36.4%
4975714 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 36.0 4.59e-01 99.0% 89.1%
3219497 103.4.1.5 ↗ alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › KIX_2 0.69 42.0 5.02e-01 76.8% 88.6%
3218555 5054.1.1.0 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.66 41.0 3.52e-01 77.8% 41.3%
5048002 4953.1.1.0 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like 0.62 50.0 4.54e-01 87.9% 81.5%
4941914 4070.1.1.2 ↗ alpha arrays › FtsH protease domain-like › FtsH protease domain-like › FtsH protease domain-like › Peptidase_M50 0.60 45.0 3.53e-01 77.8% 67.7%
4675977 7502.1.1.0 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.58 30.0 3.38e-01 88.9% 62.7%
3312745 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 45.0 3.92e-01 87.9% 95.6%
3436659 592.1.1.1 ↗ alpha arrays › PWI domain-like › PWI domain › PWI domain › PWI 0.56 40.0 4.28e-01 98.0% 85.9%
5061662 140.1.1.11 ↗ alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › DALR_1 0.53 44.0 3.36e-01 90.9% 70.8%
3979986 4.1.1.40 ↗ beta barrels › SH3 › SH3 › SH3 › FeoA 0.52 33.0 3.75e-01 100.0% 85.3%
3448400 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.51 39.0 2.87e-01 78.8% 87.8%
3443843 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.51 36.0 2.25e-01 73.7% 18.5%
3960118 191.1.1.48 ↗ alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_C_46 0.50 44.0 4.11e-01 96.0% 87.2%
3805667 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.50 35.0 2.17e-01 73.7% 15.1%